Please use this identifier to cite or link to this item: https://hdl.handle.net/11147/5046
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dc.contributor.authorBağcı, Caner-
dc.contributor.authorAllmer, Jens-
dc.date.accessioned2017-03-14T08:50:47Z-
dc.date.available2017-03-14T08:50:47Z-
dc.date.issued2012-
dc.identifier.citationBağcı, C., and Allmer, J. (2012, April 19-22). Removing contamination from genomic sequences based on vector reference libraries. Paper presented at the 7th International Symposium on Health Informatics and Bioinformatics, HIBIT 2012. doi:10.1109/HIBIT.2012.6209053en_US
dc.identifier.isbn9781467308786-
dc.identifier.urihttp://doi.org/10.1109/HIBIT.2012.6209053-
dc.identifier.urihttp://hdl.handle.net/11147/5046-
dc.description7th International Symposium on Health Informatics and Bioinformatics, HIBIT 2012; Cappadocia; Turkey; 19 April 2012 through 22 April 2012en_US
dc.description.abstractDNA is often sequenced after being cloned into a vector since this provides the possibility for using standard primers and removes the need to develop custom primers. In this way a certain amount of vector is sequenced along with the sequence of interest. Unfortunately, occasionally these contaminating vector sequences find their way into public databases as part of submitted sequences. It has been pointed out that SeqClean, a program used to remove vector contamination from sequences, does not take into account that vectors are circular structures. A workaround has been presented before, but we were able to simplify the process and, additionally, we provide an implementation. We further applied our method to a test set of EST sequences and also analyzed the amount of contamination found in the EST sequences available on NCBI. © 2012 IEEE.en_US
dc.language.isoenen_US
dc.publisherInstitute of Electrical and Electronics Engineers Inc.en_US
dc.relation.ispartof7th International Symposium on Health Informatics and Bioinformatics, HIBIT 2012en_US
dc.rightsinfo:eu-repo/semantics/openAccessen_US
dc.subjectCircular structuresen_US
dc.subjectGenomic sequenceen_US
dc.subjectPublic databaseen_US
dc.subjectVectorsen_US
dc.subjectTest setsen_US
dc.titleRemoving contamination from genomic sequences based on vector reference librariesen_US
dc.typeConference Objecten_US
dc.authoridTR107974en_US
dc.institutionauthorBağcı, Caner-
dc.institutionauthorAllmer, Jens-
dc.departmentİzmir Institute of Technology. Molecular Biology and Geneticsen_US
dc.identifier.startpage118en_US
dc.identifier.endpage122en_US
dc.identifier.scopus2-s2.0-84862734476en_US
dc.relation.publicationcategoryKonferans Öğesi - Uluslararası - Kurum Öğretim Elemanıen_US
dc.identifier.doi10.1109/HIBIT.2012.6209053-
dc.relation.doi10.1109/HIBIT.2012.6209053en_US
dc.coverage.doi10.1109/HIBIT.2012.6209053en_US
item.openairetypeConference Object-
item.openairecristypehttp://purl.org/coar/resource_type/c_18cf-
item.fulltextWith Fulltext-
item.languageiso639-1en-
item.cerifentitytypePublications-
item.grantfulltextopen-
crisitem.author.dept04.03. Department of Molecular Biology and Genetics-
Appears in Collections:Molecular Biology and Genetics / Moleküler Biyoloji ve Genetik
Scopus İndeksli Yayınlar Koleksiyonu / Scopus Indexed Publications Collection
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